Search Results - "Bonder, Marc J"

The relation between oral Candida load and bacterial microbiome profiles in Dutch older adults by Kraneveld, Eefje A, Buijs, Mark J, Bonder, Marc J, Visser, Marjolein, Keijser, Bart J F, Crielaard, Wim, Zaura, Egija

“…Currently there are no evidence-based ecological measures for prevention of overgrowth and subsequent infection by fungi in the oral cavity. The aim of this…”
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Comparing clustering and pre-processing in taxonomy analysis by BONDER, Marc J, ABELN, Sanne, ZAURA, Egija, BRANDT, Bernd W

“…Massively parallel sequencing allows for rapid sequencing of large numbers of sequences in just a single run. Thus, 16S ribosomal RNA (rRNA) amplicon…”
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Mitochondrial DNA variants modulate N-formylmethionine, proteostasis and risk of late-onset human diseases by Cai, Na, Gomez-Duran, Aurora, Yonova-Doing, Ekaterina, Kundu, Kousik, Burgess, Annette I., Golder, Zoe J., Calabrese, Claudia, Bonder, Marc J., Camacho, Marta, Lawson, Rachael A., Li, Lixin, Williams-Gray, Caroline H., Di Angelantonio, Emanuele, Roberts, David J., Watkins, Nick A., Ouwehand, Willem H., Butterworth, Adam S., Stewart, Isobel D., Pietzner, Maik, Wareham, Nick J., Langenberg, Claudia, Danesh, John, Walter, Klaudia, Rothwell, Peter M., Howson, Joanna M. M., Stegle, Oliver, Chinnery, Patrick F., Soranzo, Nicole

“…Mitochondrial DNA (mtDNA) variants influence the risk of late-onset human diseases, but the reasons for this are poorly understood. Undertaking a…”
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Discovery and quality analysis of a comprehensive set of structural variants and short tandem repeats by Jakubosky, David, Smith, Erin N., D’Antonio, Matteo, Jan Bonder, Marc, Young Greenwald, William W., D’Antonio-Chronowska, Agnieszka, Matsui, Hiroko, Stegle, Oliver, Montgomery, Stephen B., DeBoever, Christopher, Frazer, Kelly A.

“…Structural variants (SVs) and short tandem repeats (STRs) are important sources of genetic diversity but are not routinely analyzed in genetic studies because…”
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Gut Microbial Associations to Plasma Metabolites Linked to Cardiovascular Phenotypes and Risk: A Cross-Sectional Study by Kurilshikov, Alexander, van den Munckhof, Inge C.L, Chen, Lianmin, Bonder, Marc J, Schraa, Kiki, Rutten, Joost H.W, Riksen, Niels P, de Graaf, Jacqueline, Oosting, Marije, Sanna, Serena, Joosten, Leo A.B, van der Graaf, Marinette, Brand, Tessa, Koonen, Debby P.Y, van Faassen, Martijn, Slagboom, P Eline, Xavier, Ramnik J, Kuipers, Folkert, Hofker, Marten H, Wijmenga, Cisca, Netea, Mihai G, Zhernakova, Alexandra, Fu, Jingyuan

“…RATIONALE:Altered gut microbial composition has been linked to cardiovascular diseases (CVDs), but its functional links to host metabolism and immunity in…”
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DNA methylation markers associated with type 2 diabetes, fasting glucose and HbA1c levels: a systematic review and replication in a case–control sample of the Lifelines study by Walaszczyk, Eliza, Luijten, Mirjam, Spijkerman, Annemieke M. W., Bonder, Marc J., Lutgers, Helen L., Snieder, Harold, Wolffenbuttel, Bruce H. R., van Vliet-Ostaptchouk, Jana V.

“…Aims/hypothesis Epigenetic mechanisms may play an important role in the aetiology of type 2 diabetes. Recent epigenome-wide association studies (EWASs)…”
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Properties of structural variants and short tandem repeats associated with gene expression and complex traits by Jakubosky, David, D’Antonio, Matteo, Bonder, Marc Jan, Smail, Craig, Donovan, Margaret K. R., Young Greenwald, William W., Matsui, Hiroko, D’Antonio-Chronowska, Agnieszka, Stegle, Oliver, Smith, Erin N., Montgomery, Stephen B., DeBoever, Christopher, Frazer, Kelly A.

“…Structural variants (SVs) and short tandem repeats (STRs) comprise a broad group of diverse DNA variants which vastly differ in their sizes and distributions…”
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Improving Phenotypic Prediction by Combining Genetic and Epigenetic Associations by Shah, Sonia, Bonder, Marc J., Marioni, Riccardo E., Zhu, Zhihong, McRae, Allan F., Zhernakova, Alexandra, Harris, Sarah E., Liewald, Dave, Henders, Anjali K., Mendelson, Michael M., Liu, Chunyu, Joehanes, Roby, Liang, Liming, Heijmans, Bastiaan T., ’t Hoen, Peter A.C., van Meurs, Joyce, Isaacs, Aaron, Jansen, Rick, Franke, Lude, Boomsma, Dorret I., Pool, René, van Dongen, Jenny, Hottenga, Jouke J., van Greevenbroek, Marleen M.J., Stehouwer, Coen D.A., van der Kallen, Carla J.H., Schalkwijk, Casper G., Wijmenga, Cisca, Zhernakova, Sasha, Tigchelaar, Ettje F., Slagboom, P. Eline, Beekman, Marian, Deelen, Joris, van Heemst, Diana, Veldink, Jan H., van den Berg, Leonard H., van Duijn, Cornelia M., Hofman, Bert A., Uitterlinden, André G., Jhamai, P. Mila, Verbiest, Michael, Suchiman, H. Eka D., Verkerk, Marijn, van der Breggen, Ruud, van Rooij, Jeroen, Lakenberg, Nico, Mei, Hailiang, van Iterson, Maarten, van Galen, Michiel, Bot, Jan, van ’t Hof, Peter, Deelen, Patrick, Nooren, Irene, Moed, Matthijs, Vermaat, Martijn, Zhernakova, Dasha V., Luijk, René, Bonder, Marc Jan, van Dijk, Freerk, Arindrarto, Wibowo, Kielbasa, Szymon M., Swertz, Morris A., van Zwet, Erik W., Levy, Daniel, Martin, Nicholas G., Starr, John M., Wijmenga, Cisca, Wray, Naomi R., Yang, Jian, Montgomery, Grant W., Franke, Lude, Deary, Ian J., Visscher, Peter M.

“…We tested whether DNA-methylation profiles account for inter-individual variation in body mass index (BMI) and height and whether they predict these phenotypes…”
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Tobacco smoking is associated with DNA methylation of diabetes susceptibility genes by Ligthart, Symen, Steenaard, Rebecca V., Peters, Marjolein J., van Meurs, Joyce B. J., Sijbrands, Eric J. G., Uitterlinden, André G., Bonder, Marc J., Hofman, Albert, Franco, Oscar H., Dehghan, Abbas

“…Aims/hypothesis Tobacco smoking, a risk factor for diabetes, is an established modifier of DNA methylation. We hypothesised that tobacco smoking modifies DNA…”
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TaxMan: a server to trim rRNA reference databases and inspect taxonomic coverage by Brandt, Bernd W, Bonder, Marc J, Huse, Susan M, Zaura, Egija

“…Amplicon sequencing of the hypervariable regions of the small subunit ribosomal RNA gene is a widely accepted method for identifying the members of complex…”
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Gut Microbial Associations to Plasma Metabolites Linked to Cardiovascular Phenotypes and Risk by Kurilshikov, Alexander, van den Munckhof, Inge C L, Chen, Lianmin, Bonder, Marc J, Schraa, Kiki, Rutten, Joost H W, Riksen, Niels P, de Graaf, Jacqueline, Oosting, Marije, Sanna, Serena, Joosten, Leo A B, van der Graaf, Marinette, Brand, Tessa, Koonen, Debby P Y, van Faassen, Martijn, Slagboom, P Eline, Xavier, Ramnik J, Kuipers, Folkert, Hofker, Marten H, Wijmenga, Cisca, Netea, Mihai G, Zhernakova, Alexandra, Fu, Jingyuan

“…Altered gut microbial composition has been linked to cardiovascular diseases (CVDs), but its functional links to host metabolism and immunity in relation to…”
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Genotype harmonizer: automatic strand alignment and format conversion for genotype data integration by Deelen, Patrick, Bonder, Marc Jan, van der Velde, K Joeri, Westra, Harm-Jan, Winder, Erwin, Hendriksen, Dennis, Franke, Lude, Swertz, Morris A

“…To gain statistical power or to allow fine mapping, researchers typically want to pool data before meta-analyses or genotype imputation. However, the necessary…”
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Genetic and epigenetic regulation of gene expression in fetal and adult human livers by Bonder, Marc Jan, Kasela, Silva, Kals, Mart, Tamm, Riin, Lokk, Kaie, Barragan, Isabel, Buurman, Wim A, Deelen, Patrick, Greve, Jan-Willem, Ivanov, Maxim, Rensen, Sander S, van Vliet-Ostaptchouk, Jana V, Wolfs, Marcel G, Fu, Jingyuan, Hofker, Marten H, Wijmenga, Cisca, Zhernakova, Alexandra, Ingelman-Sundberg, Magnus, Franke, Lude, Milani, Lili

“…The liver plays a central role in the maintenance of homeostasis and health in general. However, there is substantial inter-individual variation in hepatic…”
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A Powerful Pathway-Based Adaptive Test for Genetic Association with Common or Rare Variants by Pan, Wei, Kwak, Il-Youp, Wei, Peng

“…In spite of the success of genome-wide association studies (GWASs), only a small proportion of heritability for each complex trait has been explained by…”
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Genome-wide identification of directed gene networks using large-scale population genomics data by Luijk, René, Dekkers, Koen F., van Iterson, Maarten, Arindrarto, Wibowo, Claringbould, Annique, Hop, Paul, Boomsma, Dorret I., van Duijn, Cornelia M., van Greevenbroek, Marleen M. J., Veldink, Jan H., Wijmenga, Cisca, Franke, Lude, ’t Hoen, Peter A. C., Jansen, Rick, van Meurs, Joyce, Mei, Hailiang, Slagboom, P. Eline, Heijmans, Bastiaan T., van Zwet, Erik W.

“…Identification of causal drivers behind regulatory gene networks is crucial in understanding gene function. Here, we develop a method for the large-scale…”
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Genome-wide association analyses identify 143 risk variants and putative regulatory mechanisms for type 2 diabetes by Xue, Angli, Wu, Yang, Zhu, Zhihong, Zhang, Futao, Kemper, Kathryn E., Zheng, Zhili, Yengo, Loic, Lloyd-Jones, Luke R., Sidorenko, Julia, Wu, Yeda, McRae, Allan F., Visscher, Peter M., Zeng, Jian, Yang, Jian

“…Type 2 diabetes (T2D) is a very common disease in humans. Here we conduct a meta-analysis of genome-wide association studies (GWAS) with ~16 million genetic…”
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DNA methylation markers associated with type 2 diabetes, fasting glucose and HbA 1c levels: a systematic review and replication in a case-control sample of the Lifelines study by Walaszczyk, Eliza, Luijten, Mirjam, Spijkerman, Annemieke M W, Bonder, Marc J, Lutgers, Helen L, Snieder, Harold, Wolffenbuttel, Bruce H R, van Vliet-Ostaptchouk, Jana V

“…Epigenetic mechanisms may play an important role in the aetiology of type 2 diabetes. Recent epigenome-wide association studies (EWASs) identified several DNA…”
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Microbial Impact on Plasma Metabolites is Linked to the Cardiovascular Risk and Phenotypes by van den Munckhof, Inge C., Kurilshikov, Alexander, Bonder, Marc J., Schraa, Kiki, Rutten, Joost H., Riksen, Niels P., de Graaf, Jacqueline, Oosting, Marije, Joosten, Leo A., Koonen, Debby, Slagboom, Eline P., Xavier, Ramnik J., Kuipers, Folkert, Hofker, Marten H., Wijmenga, Cisca, Netea, Mihai G., Zhernakova, Alexandra, Fu, Jingyuan

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